Transcript Data
Barley RTD
Links



Exon Structure of BART1_0-u03305.005

ChromosomeExonStartStopDirection
chr1H1366830525366830093-
chr1H2366831202366831022-
chr1H3366831486366831277-
chr1H4366832334366832002-
chr1H5366833086366832797-


grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons



Salmon TPM Values: sixteensamplesmorex

These TPM values were generated by using the RNA-seq data from a 16-tissue experiment in Morex (published here) were calculated using Salmon (version Salmon-0.8.2) using BaRTv1.0-QUASI as the reference transcript dataset. Click here for more information about the RNA-seq experiment and materials


SampleTreatmentRep 1Rep 2Rep 3
morexEMB47.166317.315633.3266
morexETI01.807610
morexLEA36.542834.457235.8241
morexEPI1.3945202.28185
morexROO27.48840.94868914.4221
morexROO20.55800.269857
morexNOD60.92411.111694.35264
morexRAC0.45588500.00958646
morexINF12.945925.959826.9849
morexINF22.396493.388523.87872
morexCAR500.900670.851173
morexCAR1501.113710
morexLEM00.3662490
morexLOD000
morexPAL0.7952710.8316250.841654
morexSEN3.8938100



Homology to Model Species (BLASTX to E-value < 1e-30)

DatabaseHitFrameE-valueScore% IdentityDescription
Rice PP7 LOC_Os10g38950.1 +3 1e-152 315 148/159 (93%) protein|CGMC_MAPKCMGC_2_ERK.14 - CGMC includes CDA, MAPK, GSK3, and CLKC kinases, expressed
TAIR PP10 AT4G01370 @ ARAPORT
AT4G01370.1 @ TAIR		 +3 7e-132 290 130/158 (82%) Symbols: ATMPK4, MPK4 | MAP kinase 4 | chr4:567219-568889 FORWARD LENGTH=376
BRACH PP3 Bradi3g32000.1.p +3 7e-157 322 153/159 (96%) pacid=32819051 transcript=Bradi3g32000.1 locus=Bradi3g32000 ID=Bradi3g32000.1.v3.1 annot-version=v3.1




Barley PseudoMolecules GBrowse

Click here to see more tracks within GBrowse -->



grey: non-coding, green: Barley Morex IBSC 2017 Transcript CDS, red: Barley RTD exons



CDS Sequence (1447 bp)

>BART1_0-u03305.005 1447 150831_barley_pseudomolecules
TCTACGTTTCTAGAAGTGGTATGCCTGAGTGGGTTCTTATTCTTATCATTACAGTTTTAC
TGTTGACGGGCTTTGTTGTCCACTCGTGCTCACACTGTCAGGCATTCCTATGATGGGTTT
ATTCTGATAGTGGTTTCAAAATTGGATCACAGATTCTTGCCATGAAGGATTTAATACGCC
CCCCAAGAAGAGATGATTTTAAGGATGTGTACATTGTTACTGAGTTGATGGACACTGATC
TCCATCAGATCATTCGCTCAAATCAATCATTGACTGATGACCATTGCCAGTACTTCTTGT
ATCAATTGCTTCGAGGGCTAAAATATGTGCACTCAGCAAATGTCTTGCACCGTGATCTGA
AGCCAAGCAATTTGTTCCTAAACGCAAATTGCGATCTCAAGATTGCTGACTTTGGGCTTG
CAAGGACCACTTCAGAAACTGATCTCATGACAGAGTATGTGGTCACTCGTTGGTACCGAG
CGCCAGAGTTGCTGTTGAACTGTTCACAATATACTGCTGCTATTGATGTCTGGTCAGTTG
GGTGCATACTTGGTGAAATTATTACTCGTCAACCCCTGTTTCCTGGAAGAGATTACATCC
AACAGTTAAAGTTAATCACCGAGTCCTTTCCGGCATTCTGCTTCAAAAGCTGATAGGATC
ACCAGATGATTCAAGCCTGGGATTTCTTCGGAGTGATAATGCACGAAGATACATGAAGCA
ATTACCACAGTACCCAAGGCAGGACTTCCGCCTGCGCTTCCGCAACATGTCTGATGGTGC
AGTTGATCTGTTAGAGAGGATGCTGGTGTTTGACCCAAGCAGACGCATTACTGTTGATGA
GGCTCTGCATCACCCATACTTGGCTTCTCTTCATGACATCAATGAAGAACCCACTTGCCC
GGCACCTTTCAGCTTTGATTTTGAGCAACCATCTTTTACAGAAGAACATATGAAAGAGCT
CATCTGGAGGGAAACTTTAGCATTTAACCCTGATCCGCCCTACTAAGAGCCAAGACCAAA
TTACCAGCTGAGGGCATTGAAGATCTACCTCTAGCTCTAGTGAAGCCGATATTTCCATGT
CTTGTGCATCTATTTATTTTATGCTCGCTTATTGGGCGAATGGGCATGGATTATTTGTTG
CTGTAACTATTTCTTTTGTGGCCTTTCTGAAGAAACGACATTTGTATGAGATGGCTTGTA
TTATACCGGTTGATTGAATAAACTGGTCTTGTGTATCTAAAGCTTGTAATTTTGTGTACA
CTTATCTAAACATCCCATGTATATCTGAGTTAACATATTCCCTTTTATTATCTCAAGCAT
GTAATTTGGCATTTTGTGATCGGTCGTATCGAAGTTGCCGATATAATTTCGCTCTGAAAT
TCAGTTCACTGGTAGGTGTATCCCACATTAAAAGTTTGTACATGCTATTCTATGTATTAC
TTACTCC



Protein Sequence (163 aa)

>BART1_0-u03305.005 163 150831_barley_pseudomolecules
MKDLIRPPRRDDFKDVYIVTELMDTDLHQIIRSNQSLTDDHCQYFLYQLLRGLKYVHSAN
VLHRDLKPSNLFLNANCDLKIADFGLARTTSETDLMTEYVVTRWYRAPELLLNCSQYTAA
IDVWSVGCILGEIITRQPLFPGRDYIQQLKLITESFPAFCFKS